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python-biopython  1.60
Variables
test_BioSQL_SeqIO Namespace Reference

Variables

string message = "Check settings in Tests/setup_BioSQL.py "
string db_name = "biosql-seqio-test"
list test_files
tuple server
tuple db = server.new_database(db_name)
int db_count = 0
tuple iterator = SeqIO.parse(handle=open(t_filename,"r"), format=t_format)
tuple count = db.load(iterator)
 key = record.name
tuple db_rec = db.lookup(name=key)
tuple accs = sorted(set(record.annotations["accessions"]))

Variable Documentation

tuple test_BioSQL_SeqIO.accs = sorted(set(record.annotations["accessions"]))

Definition at line 176 of file test_BioSQL_SeqIO.py.

Definition at line 149 of file test_BioSQL_SeqIO.py.

tuple test_BioSQL_SeqIO.db = server.new_database(db_name)

Definition at line 141 of file test_BioSQL_SeqIO.py.

Definition at line 143 of file test_BioSQL_SeqIO.py.

string test_BioSQL_SeqIO.db_name = "biosql-seqio-test"

Definition at line 37 of file test_BioSQL_SeqIO.py.

tuple test_BioSQL_SeqIO.db_rec = db.lookup(name=key)

Definition at line 162 of file test_BioSQL_SeqIO.py.

tuple test_BioSQL_SeqIO.iterator = SeqIO.parse(handle=open(t_filename,"r"), format=t_format)

Definition at line 148 of file test_BioSQL_SeqIO.py.

list test_BioSQL_SeqIO.key = record.name

Definition at line 160 of file test_BioSQL_SeqIO.py.

string test_BioSQL_SeqIO.message = "Check settings in Tests/setup_BioSQL.py "

Definition at line 31 of file test_BioSQL_SeqIO.py.

Initial value:
00001 BioSeqDatabase.open_database(driver = DBDRIVER,
00002                                       user = DBUSER, passwd = DBPASSWD,
00003                                       host = DBHOST, db = TESTDB)

Definition at line 125 of file test_BioSQL_SeqIO.py.

Definition at line 41 of file test_BioSQL_SeqIO.py.